Introduction to Mouse Whole Exome Sequencing
Mouse whole exome sequencing (WES) is a technique used to sequence all the protein-coding regions of the mouse genome, known as exome. The exonic region constitutes a small fraction of the genome but contains a large proportion of genetic variations that are responsible for diseases and abnormal phenotypes. It is a cost-effective alternative to whole genome sequencing and has applications in diverse areas such as identifying genetic disease-related variants, discovering biomarkers and therapeutic targets, studying complex diseases, cancer research, or developmental biology.
Novogene has extensive experience with mouse whole exome sequencing with commercial WES panels from leading providers such as Agilent. Our mouse WES service is complete with high-quality data, bioinformatics analysis with variant annotation and “publication-ready’’ figures accompanying the analysis.
Applications of Mouse Whole Exome Sequencing
Mouse Whole Exome Sequencing has applications in several fields including:
- Drug discovery
- Cancer research
- Biomedical sciences
- Developmental biology
- Immunology
Benefits of Novogene’s Mouse Whole Exome sequencing service
- Extensive Experience: Novogene has extensive experience with mouse whole exome sequencing using commercial WES panels such as from Agilent.
- High-Quality Data: We deliver high-quality sequencing data that meets leading industry standards.
- Bioinformatics Support: We provide comprehensive bioinformatics support, including SNV, InDel, CNV analysis, complete with ‘publication ready’ figures using your data base of choice.
- Short Read and Long Read Sequencing: Novogene provides the option of carrying out your sequencing projects with your choice of sequencing strategy, short read and long read, using the latest sequencing platforms on the market.
- Fast Turnaround Times: Our sequencing labs are located near you, in Germany and the UK, allowing for reduced shipping times. With our large sequencing capacity, automated and streamlined workflows, we ensure that you receive your data promptly without compromising on quality
- Customer Service System (CSS): Novogene’s Customer Self Service System (CSS) is an online project management portal that streamlines project management and provides direct access to all your sequencing projects in one place. You can view your sequencing project(s), track their progress, access reports, collaborate with your team members, and obtain other useful information at one place.
Whole Exome and Target Region Sequencing Service Flyer
Whole Exome Sequencing provides a cost-effective alternative to whole genome sequencing, as it targets only the protein coding region of the human genome responsible for the majority of known disease-related variants. Whether you are conducting studies in rare mendelian disorders, complex disease, cancer research, or human population studies, Novogene’s comprehensive human whole exome sequencing service provides a high-quality, affordable, and convenient solution. Target region sequencing focuses on gene subsets related to a certain disease or phenotype and is even more cost-effective than WES when investigating regions of interest, achieving delivery of much higher coverage and identification of rare variants.
On-demand Webinar
Getting Started with Genomics: Next Generation Sequencing Essentials for 2024
This webinar will provide an accessible introduction to NGS principles and its pivotal role in decoding the secrets of DNA. It will explore the basics of DNA sequencing applications and provide insights into the array of technological platforms available, including Illumina, PacBio, and Oxford Nanopore. Whether you’re a beginner or an experienced professional, this webinar is set to offer a foundational understanding of NGS that will enhance your journey with genomic technologies.
The session will also touch upon Novogene’s contributions to the genomics field and detail the expanded services available for European customers that have contributed to this.
Learning Objectives:
- Gain foundational knowledge of NGS principles
- Understand the basics of DNA sequencing applications and technologies
- Learn about recent developments in NGS technology and services.
Mouse WES Specifications: DNA Sample Requirements
| Service | Sample Type | Amount (Qubit®) | Volume | Concentration | Purity (NanoDrop™/Agarose Gel) |
| Mouse WES | Genomic DNA | ≥300 ng | ≥15 μL | ≥20 ng/μL | OD260/280 = 1.8-2.0; no degradation, no contamination Fragments longer than 3000 bp |
| FFPE* DNA | ≥300 ng | ≥20 μL | ≥15 ng/μL | Fragments longer than 1000 bp |
*Formalin-Fixed, Paraffin-Embedded
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CANCER CELLIssue Date: 22 June 2023IF: 50.3DOI: 10.1016/j.ccell.2023.06.001
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The role of APOBEC3B in lung tumor evolution and targeted cancer therapy resistance
NATURE GENETICSIssue Date: 4 December 2023IF: 30.8DOI: 10.1038/s41588-023-01592-8
Data Quality Control
Sequencing Error Rate Distribution
The sequencing error rate is the major confounding factor of precise detection of low-frequency variations by deep sequencing. It determines the quality of the sequencing data. The sequencing error rate is highly associated with the sequencing cycle, escalating towards the end of each read because of the consumption of chemical reagents, which is a common feature of the Illumina high throughput sequencing platform.
Note: The x-axis represents the position in reads, and the y-axis indicates the average error rate of bases of all reads at a position.
GC Content Distribution
GC content distribution aims to check the potential of AT/GC separation. Sample contamination, sequencing bias, and errors during library preparation can impact on the sequencing results.
Note: The x-axis represents the position in reads, and the y-axis indicates the percentage of each type of bases (A, T, G, C); different bases can be distinguished by different colors.
Alignment to Reference Genome
Sequencing Depth Distribution
Sequencing depth and coverage illustrate the average number of pair-end clean reads which are aligned to the known reference nucleotides. The sequencing coverage distribution determines whether the identification of variations can be done with a certain degree of confidence at specific base positions.
Note:
The figure shows the sequencing depth distribution of all bases in each sample. The x-axis is sequencing depth, and the y-axis is the fraction of bases with the given sequencing depth.
SNP and InDel Calling, Annotation and Statistics
Single nucleotide polymorphisms (SNPs), also known as single nucleotide variants (SNVs), constitute the largest class of genetic variants in the genome. Another class of genetic variations includes small insertions and deletions (InDels) which are <50 bp in length.
The number of SNPs/lnDelsin various genomic regions
The number of different types of SNPs/InDels in coding region
*Please contact us to get full demo report.
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